Global transcriptomic analysis via RNA-seq is often hampered by the high abundance of ribosomal (r)RNA in bacterial cells. To remove rRNA and enrich coding sequences, subtractive hybridization procedures have become the approach of choice prior to RNA-seq, with their efficiency varying in a manner dependent on sample type and composition. Yet, despite an increasing number of RNA-seq studies, co...

Single-cell sampling with RNA-seq analysis plays an important role in reference laboratory; cytogenomic diagnosis for specimens on glass-slides or rare cells in circulating blood for tumor and genetic diseases; measurement of sensitivity and specificity in tumor-tissue genomic analysis with mixed-cells; mechanism analysis of differentiation and proliferation of cancer stem cell for academic pur...

Next-generation sequencing has been widely used for the genome-wide profiling of histone modifications, transcription factor binding and gene expression through chromatin immunoprecipitated DNA sequencing (ChIP-seq) and cDNA sequencing (RNA-seq). Here, we describe a versatile library construction method that can be applied to both ChIP-seq and RNA-seq on the widely used Illumina platforms. Stan...

RNA-seq has become increasingly popular in transcriptome profiling. One of the major challenges in RNA-seq data analysis is the accurate mapping of junction reads to their genomic origins. To detect splicing sites in short reads, many RNA-seq aligners use reference transcriptome to inform placement of junction reads. However, no systematic evaluation has been performed to assess or quantify the...

The deep sequencing of an mRNA population, RNA-seq, is a very successful application of next-generation sequencing technologies (NGSTs). RNA-seq takes advantage of two key NGST features: (1) samples can be mixtures of different DNA pieces, and (2) sequencing provides both qualitative and quantitative information about each DNA piece analyzed. We recently used RNA-seq to study the transcriptome ...

MOTIVATION RNA-Seq experiments have shown great potential for transcriptome profiling. While sequencing increases the level of biological detail, integrative data analysis is also important. One avenue is the construction of coexpression networks. Because the capacity of RNA-Seq data for network construction has not been previously evaluated, we constructed a coexpression network using striatal...

Abstract Background The flesh pigmentation of farmed Atlantic salmon is formed by accumulation carotenoids derived from commercial diets. In the gastrointestinal system, hindgut considered critical in processes uptake and metabolism. Tasmania, color depletion can noticeably affect at different levels severity following extremely hot summers. this study, RNA sequencing (RNA-Seq) was performed to...

MOTIVATION RNA-seq has become the method of choice to quantify genes and exons, discover novel transcripts and detect fusion genes. However, reliable variant identification from RNA-seq data remains challenging because of the complexities of the transcriptome, the challenges of accurately mapping exon boundary spanning reads and the bias introduced during the sequencing library preparation. M...

Rationale: circular RNAs (circRNAs) have been demonstrated to play a crucial role in cancer progression. KIAA1429, key component of the m6A methyltransferase complex, has recently reported promote hepatocellular carcinoma (HCC) progression by regulating methylation. The aim present study is investigate KIAA1429-mediated HCC Methods: RNA sequencing (RNA-seq) and methylated immunoprecipitation (m...

هديكچ ط ي لاس اه ي خا ي ر پ ي تفرش لباق هظحلام ا ي رد طابترا اب لولس ه ا ي نب ي دا ي لصاح هدش تسا هک ون ي د شخب هار اهراک ي ون ي ن نامرد ي رد ب ي رام ي اه ي بعص جلاعلا م ي .دشاب ا ي ن لولس اه هک رد مامت ناگرا ي مس اه ي دنچ لولس ي روضح ،دنراد اناوت يي سقت ي م و دبت ي ل هب لولس اه يي سب ي را صاصتخا ي ار هتشاد و نچمه ي ن رداق هب اج ي زگ ي ن ...